Aliciella subsection Subnuda
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA983746 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:<p>Intratumoral genetic heterogeneity has been characterized across cancers by genome sequencing of bulk tumors, including chronic lymphocytic leukemia (CLL). In order to more accurately identify subclones, define phylogenetic relationships, and probe genotype-phenotype relationships, we developed methods for targeted mutation detection in DNA and RNA isolated from thousands of single cells from five CLL samples. By clearly resolving phylogenic relationships, we uncovered mutated LCP1 and WNK1 as novel CLL drivers, supported by functional evidence demonstrating their impact on CLL pathways. Integrative analysis of somatic mutations with transcriptional states prompts the idea that convergent evolution generates phenotypically similar cells in distinct genetic branches, thus creating a cohesive expression profile in each CLL sample despite the presence of genetic heterogeneity. Our study highlights the potential for single-cell RNA-based targeted analysis to sensitively determine transcriptional and mutational profiles of individual cancer cells leading to increased understanding of driving events in malignancy.</p> <p>Reprinted from Genome Research, with permission from Publisher.</p>
| phs001372 | dbGaP
Project description:Application of a genome-wide linkage method to identify genotype-phenotype relationships between distantly related strains of E. coli. Each hybridization compares transposon footprinting results from a linkage library under a selective condition with those under a nonselective condition.
2013-11-30 | GSE45421 | GEO
Project description:In this experiment, we hava analyzed a set of 45 C. jejuni strains by CGH and MLST in order to investigate whether the strain relationships inferred from the analysis of a small number of loci (MLST) reflect whole-genome gene conservation patterns observed by CGH. Keywords: individual hybridizations, comparative genomic hybridization
2008-04-21 | GSE9919 | GEO
Project description:Despite extensive studies on endogenous heart regeneration within the past 20 years, the players involved in initiating early regeneration events are far from clear. Here, we assessed the function of neutrophils, the first-responder cells to tissue damage, during heart regeneration. We detected rapid neutrophil mobilization to the injury site after ventricular amputation, peaking at 1-day post-amputation (dpa) and resolving by 3 dpa. Further analyses indicated neutrophil mobilization coincides with peak epicardial cell proliferation and recruited neutrophils associated with activated, expanding epicardial cells at 1 dpa. Neutrophil depletion inhibited myocardial regeneration and significantly reduced epicardial cell expansion, proliferation, and activation. To explore the molecular mechanism of neutrophils on the epicardial regenerative response, we performed scRNA-seq analysis of 1 dpa neutrophils and identified enrichment of the FGF and ERK signaling pathways. Pharmacological inhibition of FGF signaling indicated its’ requirement for epicardial cell expansion, while neutrophil depletion blocked ERK signaling activation in epicardial cells. Altogether, our studies revealed that neutrophils quickly induce epicardial cells, which later accumulate at the injury site and contribute to heart regeneration.
2024-07-09 | GSE237761 | GEO